Research workbench
Solution structure of the mithramycin dimer-DNA complex
Analyse Solution structure of the mithramycin dimer-DNA complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 146D
- Type
- DNA
- Length
- 12 nucleotides
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*TP*CP*GP*CP*GP*A)-3')
- Ligands
- DDA, DDL, MDA, CRH, MG
Structure
solution nmr · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA (5'-D(*TP*CP*GP*CP*GP*A)-3') | dna | 6 | — | — |
Ligands and binding sites
- DDA · beta-D-Olivopyranose · ligand · 6 copies · chains A, B
- DDL · 2,6-dideoxy-beta-D-galactopyranose · ligand · 2 copies · chains A, B
- MDA · 2,6-dideoxy-3-C-methyl-beta-D-ribo-hexopyranose · ligand · 2 copies · chains A, B
- CRH · 1,2-hydro-1-oxy-3,4-hydro-3-(1-methoxy-2-oxy-3,4-dihydroxypentyl)-8,9-dihyroxy-7-methylanthracene · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 275 Ų buried · 34 hydrogen bonds · nucleic-nucleic
Compared structures
- 146D · Solution structure of the mithramycin dimer-DNA complex · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 146D · PDBe 146D
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